Shicheng Guo
shihcheng.bsky.social
Shicheng Guo
@shihcheng.bsky.social
Senior Director, Translational Genetics and Data Science, Translational Medicine | Data Science | Computational Biology | Drug Discovery | Passionate about advancing genomics and biobank research through collaboration. Opinions are my own!
Belzutifan, a HIF-2α inhibitor, showed promise in a phase 2 trial with 72 patients with advanced pheochromocytoma or paraganglioma. PMID:41124218, N Engl J Med 2025, @NEJM https://doi.org/10.1056/NEJMoa2504964 #Medsky #Pharmsky #RNA #ASHG #ESHG 🧪
https://doi.org/10.1056/NEJMoa2504964
No description available
doi.org
November 25, 2025 at 1:10 PM
Activity-based co-selection enriches high-efficiency base editors, enhancing CRISPR's precision. Reduces noise for clearer insights. PMID:41087678, Nat Genet 2025, @NatureGenet @OTSociety @NAR_Open https://doi.org/10.1038/s41588-025-02366-0 #Medsky #Pharmsky #RNA #ASHG #ESHG 🧪
Activity-based selection for enhanced base editor mutational scanning | Nature Genetics
Base editing is a CRISPR-based technology that enables high-throughput, nucleotide-level functional interrogation of the genome that is essential for understanding the genetic basis of human disease and informing therapeutic development. Base editing screens have emerged as a powerful experimental approach, yet significant cell-to-cell variability in editing efficiency introduces noise that may obscure meaningful results. Here we develop a co-selection method that enriches for cells with high base editing activity, substantially increasing editing efficiency at a target locus. We evaluate this activity-based selection method against a traditional screening approach by tiling guide RNAs across TP53, demonstrating its enhanced capacity to pinpoint specific mutations and protein regions of functional importance. We anticipate that this modular selection method will enhance the resolution of base editing screens across many applications. This study presents a splice-based selection method
doi.org
November 25, 2025 at 9:10 AM
IVIG's anti-inflammatory effects boost when IgG's glycan engages with Fc receptors FcγRIIB & DC-SIGN. Key in autoimmune care! PMID:41197001, Science 2025, @ScienceMagazine https://doi.org/10.1126/science.adv2927 #Medsky #Pharmsky #RNA #ASHG #ESHG 🧪
https://doi.org/10.1126/science.adv2927
No description available
doi.org
November 25, 2025 at 7:10 AM
A cluster-randomized trial on APT-Sepsis intervention showed promise in reducing maternal infection and sepsis complications globally. PMID:41259754, N Engl J Med 2025, @NEJM https://doi.org/10.1056/NEJMoa2512698 #Medsky #Pharmsky #RNA #ASHG #ESHG 🧪
https://doi.org/10.1056/NEJMoa2512698
No description available
doi.org
November 25, 2025 at 5:10 AM
Optogenetics revolutionizes neuroscience: unlocks brain insights, enhances cognition therapies. #NeuroscienceRevolution PMID:41254285, Nat Neurosci 2025, @NatureNeuro @Stanford https://doi.org/10.1038/s41593-025-02097-9 #Medsky #Pharmsky #RNA #ASHG #ESHG 🧪
Roadmap for direct and indirect translation of optogenetics into discoveries and therapies for humans | Nature Neuroscience
Optogenetics has transformed basic research on neural circuitry, led to diverse experimental insights into human brain function and dysfunction, and opened pathways for clinical translation based on new understanding of how specific cell types contribute to cognition and behavior. Many of these translational pathways do not rely on the direct application of optogenetics in humans, but rather develop and advance other treatment modalities by leveraging causal knowledge derived from optogenetic circuit neuroscience. However, a recent proof-of-principle study—showing that optogenetics applied directly to the human central nervous system can treat blindness—underscores not only the curative potential but also the need for careful ethical consideration in the extension of direct optogenetic intervention to other disorders. Here, we review relevant considerations—including the selection of clinical indications, identification of molecular and optical strategies for specificity, and navigatio
doi.org
November 25, 2025 at 4:10 AM
Discover scMOVIR: the database integrating 320+ single-cell multi-omics datasets of 20+ viruses to decode human immune responses! PMID:41231764, Nucleic Acids Res 2025, @NAR_Open https://doi.org/10.1093/nar/gkaf1153 #Medsky #Pharmsky #RNA #ASHG #ESHG 🧪
https://doi.org/10.1093/nar/gkaf1153
No description available
doi.org
November 25, 2025 at 2:10 AM
Explore the 2025 update of AFDB: streamlined interface & enhanced coverage with high-accuracy predictions. Overhaul in protein research! PMID:41273079, Nucleic Acids Res 2025, @NAR_Open https://doi.org/10.1093/nar/gkaf1226 #Medsky #Pharmsky #RNA #ASHG #ESHG 🧪
https://doi.org/10.1093/nar/gkaf1226
No description available
doi.org
November 24, 2025 at 1:10 PM
Study deciphers direct motor cortex influence on limb muscles in mice during climbing, revealing distinct 1° control by forelimb area. PMID:41198898, Nat Neurosci 2025, @NatureNeuro https://doi.org/10.1038/s41593-025-02093-z #Medsky #Pharmsky #RNA #ASHG #ESHG 🧪
Selective direct influence of motor cortex on limb muscle activity during naturalistic climbing in mice | Nature Neuroscience
When and how motor cortical output directly influences limb muscle activity through descending projections remain poorly resolved, impeding a mechanistic understanding of motor control. Here we addressed this in mice performing an ethologically inspired climbing behavior. We quantified the direct influence of forelimb primary motor cortex (caudal forelimb area) on muscles across the muscle activity states expressed during climbing. We found that the caudal forelimb area instructs muscle activity pattern by selectively activating certain muscles, while less frequently activating or suppressing their antagonists. From Neuropixels recordings, we identified linear combinations (components) of motor cortical activity that covary with these effects. These components differ partially from those that covary with muscle activity and differ almost completely from those that covary with kinematics. Collectively, our results reveal an instructive direct motor cortical influence on limb muscles tha
doi.org
November 24, 2025 at 10:10 AM
Phase 3 trial: Atacicept, a TACI-Fc protein, aims to slow IgA nephropathy—a kidney disorder affecting >50% of patients in 10-20 years. #IgANephropathy PMID:41196369, N Engl J Med 2025, @NEJM @Stanford https://doi.org/10.1056/NEJMoa2510198 #Medsky #Pharmsky #RNA #ASHG #ESHG 🧪
https://doi.org/10.1056/NEJMoa2510198
No description available
doi.org
November 24, 2025 at 9:10 AM
Discover HapScoreDB: scores for haplotype-resolved protein sequences from 1000s of human transcript isoforms. Decode variants easily! 🧬 PMID:41261743, Nucleic Acids Res 2025, @NAR_Open https://doi.org/10.1093/nar/gkaf1184 #Medsky #Pharmsky #RNA #ASHG #ESHG 🧪
https://doi.org/10.1093/nar/gkaf1184
No description available
doi.org
November 24, 2025 at 6:10 AM
New model ABACUS-T boosts protein redesign by integrating multiple features like atomic details, a pre-trained language model, and various conformations. PMID:41261139, Nat Commun 2025, @NatureComms https://doi.org/10.1038/s41467-025-65175-3 #Medsky #Pharmsky #RNA #ASHG #ESHG 🧪
Enhancing functional proteins through multimodal inverse folding with ABACUS-T | Nature Communications
Structure-based sequence redesign or inverse folding can significantly enhance structural stability but often compromises functional activity when performed using existing models. Here, we introduce ABACUS-T, a multimodal inverse folding model that improves precision and minimizes functional loss. ABACUS-T unifies several important features into one framework: detailed atomic sidechains and ligand interactions, a pre-trained protein language model, multiple backbone conformational states, and evolutionary information from multiple sequence alignment (MSA). Redesigned proteins show notable improvements: an allose binding protein achieves 17-fold higher affinity while retaining conformational change; redesigned endo-1,4-β-xylanase and TEM β-lactamase maintain or surpass wild-type activity; and OXA β-lactamase gains altered substrate selectivity. All achieve substantially increase thermostability (∆Tm ≥ 10 °C). In each test case, these enhancements are achieved by testing only a few seque
doi.org
November 23, 2025 at 10:00 PM
Just submitted my application to join an ASHG committee — excited for the chance to contribute to our human genetics community and help shape its future. Your support means a lot! #ASHG #Genomics #Medsky #Pharmsky #RNA #ASHG #ESHG 🧪
November 23, 2025 at 7:56 PM
New research reveals that tumor cells in bone marrow exploit macrophages to extract iron from red blood cells, driving tumor growth and causing anemia. PMID:41172979, Cell 2025, @Cell https://www.cell.com/cell/fulltext/S0092-8674(25)01128-6 #Medsky #Pharmsky #RNA #ASHG #ESHG 🧪
https://www.cell.com/cell/fulltext/S0092-8674(25)01128-6
No description available
www.cell.com
November 23, 2025 at 6:00 PM
Explore chromatin dynamics with ATACdb 2.0! Dive into expanded data for humans and mice, featuring enhanced pseudo-bulk ATAC-seq profiles. PMID:41243977, Nucleic Acids Res 2025, @NAR_Open https://doi.org/10.1093/nar/gkaf1222 #Medsky #Pharmsky #RNA #ASHG #ESHG 🧪
https://doi.org/10.1093/nar/gkaf1222
No description available
doi.org
November 23, 2025 at 1:10 PM
In the KARE cohort of 33,136 older Chinese adults, a higher polygenic risk score for type 2 diabetes boosts vascular dementia risk, but not Alzheimer’s. PMID:41258170, Nat Commun 2025, @NatureComms https://doi.org/10.1038/s41467-025-65252-7 #Medsky #Pharmsky #RNA #ASHG #ESHG 🧪
Polygenic risk score and cluster-based analysis suggests links between type 2 diabetes and vascular dementia in the KARE study | Nature Communications
Type 2 diabetes is an established risk factor for dementia. However, how its genetic heterogeneity affects different dementia subtypes remains unclear. In this study, we investigate the associations between genetic risk of type 2 diabetes and dementia subtypes among 33,136 older Chinese adults from the KARE cohort. We find that a higher overall polygenic risk score for type 2 diabetes is significantly associated with an increased risk of vascular dementia, but not Alzheimer’s disease. Further analyses using cluster-specific partitioned polygenic score show that elevated genetic risk specific to the hyperinsulinemia pathway is strongly associated with increased incidence of vascular dementia. These findings highlight the potential role of insulin-related metabolic abnormalities in the pathogenesis of vascular dementia and provide genetic evidence to support the use of the hyperinsulinaemia pathway as a clinically relevant marker for early risk stratification and precision prevention str
doi.org
November 23, 2025 at 10:10 AM
Explore SEA v4.0 with 496,071 Super-Enhancers & 29,584,078 enhancers from 14 species using 5 histone marks. Dive into epigenetic insights! PMID:41171129, Nucleic Acids Res 2025, @NAR_Open https://doi.org/10.1093/nar/gkaf1114 #Medsky #Pharmsky #RNA #ASHG #ESHG 🧪
https://doi.org/10.1093/nar/gkaf1114
No description available
doi.org
November 23, 2025 at 9:10 AM
Study maps brain activity in pigeons, revealing light-independent neuronal activation by Earth's magnetic field using advanced imaging. PMID:41264677, Science 2025, @ScienceMagazine https://doi.org/10.1126/science.aea6425 #Medsky #Pharmsky #RNA #ASHG #ESHG 🧪
https://doi.org/10.1126/science.aea6425
No description available
doi.org
November 23, 2025 at 7:10 AM
Study isolated heterotypic CD8 T cell clusters from 21/21 melanoma metastases. These clusters are key to understanding anti-tumor responses. PMID:41261135, Nature 2025, @Nature https://doi.org/10.1038/s41586-025-09754-w #Medsky #Pharmsky #RNA #ASHG #ESHG 🧪
Tumour-reactive heterotypic CD8 T cell clusters from clinical samples | Nature
Emerging evidence suggests a correlation between CD8+ T cell–tumour cell proximity and anti-tumour immune response1,2. However, it remains unclear whether these cells exist as functional clusters that can be isolated from clinical samples. Here, using conventional and imaging flow cytometry, we show that from 21 out of 21 human melanoma metastases, we could isolate heterotypic clusters, comprising CD8+ T cells interacting with one or more tumour cells and/or antigen-presenting cells (APCs). Single-cell RNA-sequencing analysis revealed that T cells from clusters were enriched for gene signatures associated with tumour reactivity and exhaustion. Clustered T cells exhibited increased TCR clonality indicative of expansion, whereas TCR-matched T cells showed more exhaustion and co-modulation when conjugated to APCs than when conjugated to tumour cells. T cells that were expanded from clusters ex vivo exerted on average ninefold increased killing activity towards autologous melanomas, which
doi.org
November 23, 2025 at 6:10 AM
New CreER^T2 mouse line unveiled! Visualize & manipulate preOLs to explore activity-dependent myelination in demyelinating lesions. 🧬🔬 PMID:41219502, Nat Neurosci 2025, @NatureNeuro https://doi.org/10.1038/s41593-025-02110-1 #Medsky #Pharmsky #RNA #ASHG #ESHG 🧪
Genetic targeting of premyelinating oligodendrocytes reveals activity-dependent myelination mechanisms | Nature Neuroscience
To myelinate axons, oligodendrocyte precursor cells (OPCs) must stop dividing and differentiate into premyelinating oligodendrocytes (preOLs), a transient cell stage during myelination that is often stalled at human demyelinating lesions. PreOLs extend processes, surveying nearby axons to begin ensheathment. The lack of genetic tools to visualize and manipulate preOLs has hindered their in-depth study. Here we present a CreERT2 knockin mouse line that enables genetic labeling, lineage tracing, manipulation and multimodal profiling of preOL subsets across the central nervous system. Genetically labeled preOLs are postmitotic, with distinct morphology and unique transcriptomic, epigenetic and electrophysiological features. PreOL lineage tracing revealed spatiotemporal dynamics of oligodendrogenesis across the mouse brain. Moreover, fate mapping of preOLs under sensory deprivation revealed that neuronal activity influences preOLs within a narrow maturation window, promoting their survival
doi.org
November 23, 2025 at 5:10 AM
Seipin-adipogenin protein complex boosts lipid droplet expansion for mature adipocytes formation. Insights for targeting obesity! 🌟 PMID:41196972, Science 2025, @ScienceMagazine https://doi.org/10.1126/science.aec4109 #Medsky #Pharmsky #RNA #ASHG #ESHG 🧪
https://doi.org/10.1126/science.aec4109
No description available
doi.org
November 23, 2025 at 4:10 AM
Orforglipron, a once-daily oral GLP-1 agonist, shows promise for obesity. Tested 6mg, 12mg, 36mg vs. placebo in a 72-week study. Outcomes look positive! PMID:40960239, N Engl J Med 2025, @NEJM https://doi.org/10.1056/NEJMoa2511774 #Medsky #Pharmsky #RNA #ASHG #ESHG 🧪
https://doi.org/10.1056/NEJMoa2511774
No description available
doi.org
November 23, 2025 at 1:10 AM
Explore how the blood-brain barrier's dynamic modulation supports CNS homeostasis, neural, and glial plasticity. PMID:41094205, Nat Rev Neurosci 2025, @NatRevNeurosci https://doi.org/10.1038/s41583-025-00976-5 #Medsky #Pharmsky #RNA #ASHG #ESHG 🧪
Dynamic modulation of the blood–brain barrier in the healthy brain | Nature Reviews Neuroscience
The blood–brain barrier (BBB) performs intricate and dynamic functions that extend far beyond its traditional role as a static protective barrier, playing a pivotal role in maintaining CNS homeostasis. These multifaceted functions are rooted in its specialized architectural and cellular composition. In this Review, we examine the dynamic modulation of BBB function during physiological conditions and the hypothesis that such modulation contributes directly to neural and glial plasticity. We provide an integrated examination of the BBB’s diverse cellular components — endothelial cells, pericytes, astrocytes, microglia and vascular smooth muscle cells — across different CNS vascular segments. We discuss how physiological features and states, including circadian rhythms, physical activity, stress and hormonal fluctuations, dynamically alter BBB permeability and signalling, potentially shaping synaptic function, neuronal circuit dynamics and glial responsiveness. Understanding these mechani
doi.org
November 22, 2025 at 10:00 PM
Rare genetic variants in exome data from 8,895 individuals unveil high ADHD risk, highlighting neuronal biology. A new dimension to this prevalent disorder! PMID:41224997, Nature 2025, @Nature https://doi.org/10.1038/s41586-025-09702-8 #Medsky #Pharmsky #RNA #ASHG #ESHG 🧪
Rare genetic variants confer a high risk of ADHD and implicate neuronal biology | Nature
Attention deficit hyperactivity disorder (ADHD) is a childhood-onset neurodevelopmental disorder with a large genetic component1. It affects around 5% of children and 2.5% of adults2, and is associated with several severe outcomes3–11. Common genetic variants associated with the disorder have been identified12,13, but the role of rare variants in ADHD is mostly unknown. Here, by analysing rare coding variants in exome-sequencing data from 8,895 individuals with ADHD and 53,780 control individuals, we identify three genes (MAP1A, ANO8 and ANK2; P < 3.07 × 10−6; odds ratios 5.55–15.13) that are implicated in ADHD. The protein–protein interaction networks of these three genes were enriched for rare-variant risk genes of other neurodevelopmental disorders, and for genes involved in cytoskeleton organization, synapse function and RNA processing. Top associated rare-variant risk genes showed increased expression across pre- and postnatal brain developmental stages and in several neur
doi.org
November 22, 2025 at 8:00 PM
Discover FerrDb V3: now includes regulators & disease links across regulated cell death beyond just ferroptosis. Dive into expanded insights today! PMID:41171133, Nucleic Acids Res 2025, @NAR_Open https://doi.org/10.1093/nar/gkaf1119 #Medsky #Pharmsky #RNA #ASHG #ESHG 🧪
https://doi.org/10.1093/nar/gkaf1119
No description available
doi.org
November 22, 2025 at 4:00 PM